Sequencing-based analysis of microbiomes
Microbiomes occupy a range of niches and, in addition to having diverse compositions, they
have varied functional roles that have an impact on agriculture, environmental sciences, and …
have varied functional roles that have an impact on agriculture, environmental sciences, and …
[HTML][HTML] Omics approaches for understanding heavy metal responses and tolerance in plants
Recent years have witnessed a gradual increase in the bioavailability and groundwater
leaching of toxic heavy metals (HMs) in the environment, driven mainly by anthropogenic …
leaching of toxic heavy metals (HMs) in the environment, driven mainly by anthropogenic …
Critical assessment of metagenome interpretation: the second round of challenges
Evaluating metagenomic software is key for optimizing metagenome interpretation and focus
of the Initiative for the Critical Assessment of Metagenome Interpretation (CAMI). The CAMI II …
of the Initiative for the Critical Assessment of Metagenome Interpretation (CAMI). The CAMI II …
GenStore: A high-performance in-storage processing system for genome sequence analysis
Read map** is a fundamental step in many genomics applications. It is used to identify
potential matches and differences between fragments (called reads) of a sequenced …
potential matches and differences between fragments (called reads) of a sequenced …
FPGA-based near-memory acceleration of modern data-intensive applications
Modern data-intensive applications demand high computational capabilities with strict
power constraints. Unfortunately, such applications suffer from a significant waste of both …
power constraints. Unfortunately, such applications suffer from a significant waste of both …
Long-read sequencing reveals extensive gut phageome structural variations driven by genetic exchange with bacterial hosts
Genetic variations are instrumental for unraveling phage evolution and deciphering their
functional implications. Here, we explore the underlying fine-scale genetic variations in the …
functional implications. Here, we explore the underlying fine-scale genetic variations in the …
Deriving confidence intervals for mutation rates across a wide range of evolutionary distances using FracMinHash
Sketching methods offer computational biologists scalable techniques to analyze data sets
that continue to grow in size. MinHash is one such technique to estimate set similarity that …
that continue to grow in size. MinHash is one such technique to estimate set similarity that …
[HTML][HTML] From molecules to genomic variations: Accelerating genome analysis via intelligent algorithms and architectures
We now need more than ever to make genome analysis more intelligent. We need to read,
analyze, and interpret our genomes not only quickly, but also accurately and efficiently …
analyze, and interpret our genomes not only quickly, but also accurately and efficiently …
Defining blood plasma and serum metabolome by GC-MS
O Kiseleva, I Kurbatov, E Ilgisonis, E Poverennaya - Metabolites, 2021 - mdpi.com
Metabolomics uses advanced analytical chemistry methods to analyze metabolites in
biological samples. The most intensively studied samples are blood and its liquid …
biological samples. The most intensively studied samples are blood and its liquid …
Fulgor: a fast and compact k-mer index for large-scale matching and color queries
The problem of sequence identification or matching—determining the subset of reference
sequences from a given collection that are likely to contain a short, queried nucleotide …
sequences from a given collection that are likely to contain a short, queried nucleotide …